Figure - PMC

Skip to main content

An official website of the United States government

Here's how you know

Here's how you know

Official websites use .gov
A .gov website belongs to an official government organization in the United States.

Secure .gov websites use HTTPS
A lock ( ) or https:// means you've safely connected to the .gov website. Share sensitive information only on official, secure websites.

View full-text article in PMC

. 2013 May 8;41(12):e128. doi: 10.1093/nar/gkt339

Search in PMC
Search in PubMed
View in NLM Catalog
Add to search

© The Author(s) 2013. Published by Oxford University Press.

This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/3.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited.

PMC Copyright notice

Figure 2. — Performance test of Reprever in breakpoint and sequence inference. Totally 1000 simulated genomes are constructed and underwent random duplication up to four copies. (A) Reprever identified up to 97% of the breakpoints. In >90% of four copy insertion cases, Reprever exactly found insertion sites. (B) Distribution of error between true/inferred breakpoints. Errors <0 denotes that the inferred breakpoints are located upstream of true breakpoints, errors >0 denotes downstream. The average error size is 3.15 bp. (C) Accuracy of reconstructed duplicate sequences in 969 test genomes. Comparisons between the true and inferred sequences () are measured in sequence dissimilarity using BLAST. Compared with the reference sequence A_H, which is the best estimate sequence for extra copies without reconstruction, Reprever-inferred sequences have much less mismatches to the true answers (green bars). The performance is consistent regardless of initial diversity among duplicons (red bars). (D) Reprever can reconstruct multiple duplicates simultaneously without an accuracy loss.

Inline graphic — Performance test of Reprever in breakpoint and sequence inference. Totally 1000 simulated genomes are constructed and underwent random duplication up to four copies. (A) Reprever identified up to 97% of the breakpoints. In >90% of four copy insertion cases, Reprever exactly found insertion sites. (B) Distribution of error between true/inferred breakpoints. Errors <0 denotes that the inferred breakpoints are located upstream of true breakpoints, errors >0 denotes downstream. The average error size is 3.15 bp. (C) Accuracy of reconstructed duplicate sequences in 969 test genomes. Comparisons between the true and inferred sequences () are measured in sequence dissimilarity using BLAST. Compared with the reference sequence A_H, which is the best estimate sequence for extra copies without reconstruction, Reprever-inferred sequences have much less mismatches to the true answers (green bars). The performance is consistent regardless of initial diversity among duplicons (red bars). (D) Reprever can reconstruct multiple duplicates simultaneously without an accuracy loss.